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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/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' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ), 'gf_id' => 'HOM05D001048', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001048' ), 'data_identifier' => 'HOM05D001048', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001048', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07200' => 'bna', 'A02p24880' => 'bna', 'A03p30980' => 'bna', 'A04p18550' => 'bna', 'A09p02010' => 'bna', 'A09p56380' => 'bna', 'A10p01660' => 'bna', 'A10p16160' => 'bna', 'Aa31LG1G9500' => 'aar', 'Aa31LG3G13830' => 'aar', 'Aa31LG3G13840' => 'aar', 'Aa31LG5G2220' => 'aar', 'Aa31LG7G11750' => 'aar', 'Aa31LG7G12550' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1932' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.292' => 'aag', 'Actinidia04493' => 'ach', 'Actinidia04662' => 'ach', 'Actinidia09094' => 'ach', 'Actinidia19980' => 'ach', 'Actinidia21104' => 'ach', 'Actinidia21152' => 'ach', 'Actinidia23550' => 'ach', 'Actinidia27520' => 'ach', 'Actinidia38336' => 'ach', 'Actinidia38677' => 'ach', 'Actinidia40097' => 'ach', 'Ah.01g024050' => 'amhyb', 'Ah.02g111420' => 'amhyb', 'Ah.06g192360' => 'amhyb', 'Ah.11g050010' => 'amhyb', 'AL1G12490' => 'aly', 'AL4G14550' => 'aly', 'AL6G50460' => 'aly', 'AL7G21100' => 'aly', 'AL8G34110' => 'aly', 'Aqoxy2G03270' => 'aox', 'Aqoxy5G00358' => 'aox', 'Aqoxy7G03445' => 'aox', 'Aqoxy7G04167' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0C0JW2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0N71ZE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.299G7E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S471Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RJJ4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIHX2N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DLM80I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I74PB0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K6AK80' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7N7TV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N6Y25N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QS4KSE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UW38L3' => 'arhy', 'AT1G03040' => 'ath', 'AT2G24260' => 'ath', 'AT4G02590' => 'ath', 'AT4G30980' => 'ath', 'AT5G58010' => 'ath', 'ATR0099G010' => 'atr', 'ATR0626G011' => 'atr', 'ATR0665G101' => 'atr', 'ATR0739G086' => 'atr', 'Atru.chr2.820' => 'acertr', 'Atru.chr5.1558' => 'acertr', 'Atru.chr7.1778' => 'acertr', 'Atru.chr7.84' => 'acertr', 'AUR62001007' => 'cqu', 'AUR62004950' => 'cqu', 'AUR62005693' => 'cqu', 'AUR62011948' => 'cqu', 'AUR62028866' => 'cqu', 'AUR62032262' => 'cqu', 'BcaB01g02029' => 'bca', 'BcaB01g02476' => 'bca', 'BcaB01g02496' => 'bca', 'BcaB03g12671' => 'bca', 'BcaB05g22393' => 'bca', 'BcaB05g22394' => 'bca', 'BcaB05g23649' => 'bca', 'BcaC01g01122' => 'bca', 'BcaC01g06746' => 'bca', 'BcaC02g08485' => 'bca', 'BcaC03g16151' => 'bca', 'BcaC04g19917' => 'bca', 'BcaC04g23999' => 'bca', 'BcaC07g40945' => 'bca', 'BcaC07g42288' => 'bca', 'BcaC07g42293' => 'bca', 'BcaC09g51886' => 'bca', 'BcaNung03424' => 'bca', 'BolC1t00783H' => 'bol', 'BolC2t07488H' => 'bol', 'BolC2t09937H' => 'bol', 'BolC3t13906H' => 'bol', 'BolC3t16065H' => 'bol', 'BolC4t26934H' => 'bol', 'BolC5t28945H' => 'bol', 'BolC8t51509H' => 'bol', 'BolC9t53141H' => 'bol', 'BolC9t57835H' => 'bol', 'BraA01t00671Z' => 'bra', 'BraA02t05878Z' => 'bra', 'BraA02t07475Z' => 'bra', 'BraA03t10559Z' => 'bra', 'BraA03t12275Z' => 'bra', 'BraA04t17465Z' => 'bra', 'BraA09t35851Z' => 'bra', 'BraA10t42443Z' => 'bra', 'BraA10t43613Z' => 'bra', 'C01p07960' => 'bna', 'C02p39260' => 'bna', 'C03p37750' => 'bna', 'C03p88350' => 'bna', 'C03p88360' => 'bna', 'C04p53790' => 'bna', 'C05p01660' => 'bna', 'C08p39370' => 'bna', 'C09p02110' => 'bna', 'C09p49870' => 'bna', 'CAN.G11.4' => 'can', 'CAN.G1424.1' => 'can', 'CAN.G1488.4' => 'can', 'CAN.G4398.1' => 'can', 'CAN.G551.34' => 'can', 'CAN.G619.13' => 'can', 'CAN.G626.5' => 'can', 'CANSAT01G0900' => 'cansat', 'CANSAT11G0995' => 'cansat', 'CANSAT54G1734' => 'cansat', 'CANSAT56G3320' => 'cansat', 'CANSAT56G4384' => 'cansat', 'CARHR002380' => 'chi', 'CARHR117840' => 'chi', 'CARHR238870' => 'chi', 'CARHR250880' => 'chi', 'CARHR271820' => 'chi', 'Carub.0001s0217' => 'cru', 'Carub.0004s0359' => 'cru', 'Carub.0006s3455' => 'cru', 'Carub.0007s0956' => 'cru', 'Carub.0008s1856' => 'cru', 'Ca_08642_v3' => 'car', 'Ca_10044_v3' => 'car', 'Ca_14582_v3' => 'car', 'Ca_21115_v3' => 'car', 'CBR_g50332' => 'cbr', 'CBR_g50790' => 'cbr', 'Cc00_g20690' => 'ccan', 'Cc01_g18880' => 'ccan', 'Cc06_g15180' => 'ccan', 'CDE01G0740' => 'cde', 'CDE02G1159' => 'cde', 'CDE03G0087' => 'cde', 'CDE05G1450' => 'cde', 'CDE05G2306' => 'cde', 'CDE06G1781' => 'cde', 'CDE08G0841' => 'cde', 'CDE12G0608' => 'cde', 'Cfa002321' => 'cfa', 'Cfa003954' => 'cfa', 'Cfa006426' => 'cfa', 'Cfa020843' => 'cfa', 'Ciclev10001768m.g' => 'ccl', 'Ciclev10008008m.g' => 'ccl', 'Ciclev10008192m.g' => 'ccl', 'Ciclev10021443m.g' => 'ccl', 'CiPaw.03G257000' => 'cil', 'CiPaw.04G181500' => 'cil', 'CiPaw.08G123400' => 'cil', 'CiPaw.15G174800' => 'cil', 'CiPaw.16G114500' => 'cil', 'ClCG02G017110' => 'cla', 'ClCG03G016390' => 'cla', 'ClCG06G012270' => 'cla', 'ClCG09G007500' => 'cla', 'COL.COLO4_06082' => 'col', 'COL.COLO4_15350' => 'col', 'COL.COLO4_18786' => 'col', 'COL.COLO4_21199' => 'col', 'Cpa.g.c30708.1' => 'cpa', 'Cpa.g.c38684' => 'cpa', 'Cpa.g.sc117.94' => 'cpa', 'Cpa.g.sc52.97' => 'cpa', 'Cpa.g.sc82.59' => 'cpa', 'CsaV3_1G028780' => 'csa', 'CsaV3_1G039580' => 'csa', 'CsaV3_2G003660' => 'csa', 'CsaV3_7G027630' => 'csa', 'CSS0014028' => 'camsi', 'CSS0019408' => 'camsi', 'CSS0025352' => 'camsi', 'CSS0028233' => 'camsi', 'CSS0040381' => 'camsi', 'CSS0041447' => 'camsi', 'DCAR_002356' => 'dca', 'DCAR_002688' => 'dca', 'DCAR_012515' => 'dca', 'DCAR_019383' => 'dca', 'DCAR_024199' => 'dca', 'DCAR_027267' => 'dca', 'Dinv10011' => 'din', 'Dinv20304' => 'din', 'Dinv20307' => 'din', 'Dinv22484' => 'din', 'Dinv25501' => 'din', 'Dinv31813' => 'din', 'Dinv34564' => 'din', 'Dinv40652' => 'din', 'Dinv41392' => 'din', 'Dinv42874' => 'din', 'Dinv43226' => 'din', 'Dinv44612' => 'din', 'Duzib128G0264' => 'dzi', 'Duzib133G1362' => 'dzi', 'Duzib138G0868' => 'dzi', 'Duzib150G1334' => 'dzi', 'Duzib150G1390' => 'dzi', 'Duzib168G0413' => 'dzi', 'Duzib168G2379' => 'dzi', 'Duzib177G0620' => 'dzi', 'Duzib187G0388' => 'dzi', 'ECA233G1335' => 'eca', 'ECA233G1739' => 'eca', 'ECA240G0996' => 'eca', 'ECA247G3622' => 'eca', 'EL10Ac4g09142' => 'bvu', 'EL10Ac5g10470' => 'bvu', 'EL10Ac6g13581' => 'bvu', 'Eucgr.B01487' => 'egr', 'Eucgr.C00360' => 'egr', 'Eucgr.C02592' => 'egr', 'Eucgr.H04337' => 'egr', 'Eucgr.L01929' => 'egr', 'FAN02G1462' => 'fan', 'FAN05G5800' => 'fan', 'FAN09G1081' => 'fan', 'FAN14G3802' => 'fan', 'FAN15G0160' => 'fan', 'FAN19G1289' => 'fan', 'FAN20G1966' => 'fan', 'FAN23G2443' => 'fan', 'FAN24G1912' => 'fan', 'FAN26G0839' => 'fan', 'FAN27G3059' => 'fan', 'FAN28G0090' => 'fan', 'FAN28G2432' => 'fan', 'FvH4_1g01110' => 'fve', 'FvH4_1g09520' => 'fve', 'FvH4_2g22560' => 'fve', 'FvH4_6g02900' => 'fve', 'Glyma.02G142800' => 'gma', 'Glyma.02G202600' => 'gma', 'Glyma.03G158500' => 'gma', 'Glyma.09G098300' => 'gma', 'Glyma.10G031600' => 'gma', 'Glyma.10G162300' => 'gma', 'Glyma.15G203900' => 'gma', 'Glyma.17G075200' => 'gma', 'Glyma.19G160900' => 'gma', 'Glyma.20G224700' => 'gma', 'Gohir.A05G036500' => 'ghi', 'Gohir.A05G051900' => 'ghi', 'Gohir.A06G096700' => 'ghi', 'Gohir.A07G017400' => 'ghi', 'Gohir.A07G208600' => 'ghi', 'Gohir.A08G062100' => 'ghi', 'Gohir.A08G188300' => 'ghi', 'Gohir.A11G127200' => 'ghi', 'Gohir.A11G248400' => 'ghi', 'Gohir.D05G038000' => 'ghi', 'Gohir.D05G053400' => 'ghi', 'Gohir.D06G097200' => 'ghi', 'Gohir.D07G017200' => 'ghi', 'Gohir.D07G214500' => 'ghi', 'Gohir.D08G071200' => 'ghi', 'Gohir.D08G206700' => 'ghi', 'Gohir.D11G132600' => 'ghi', 'Gohir.D11G243032' => 'ghi', 'Gohir.D11G259100' => 'ghi', 'Gorai.001G017900' => 'gra', 'Gorai.001G242500' => 'gra', 'Gorai.004G075200' => 'gra', 'Gorai.004G218900' => 'gra', 'Gorai.007G141800' => 'gra', 'Gorai.007G257400' => 'gra', 'Gorai.007G277200' => 'gra', 'Gorai.009G038500' => 'gra', 'Gorai.009G055200' => 'gra', 'Gorai.010G112200' => 'gra', 'GSVIVG01000717001' => 'vvi', 'GSVIVG01015006001' => 'vvi', 'GSVIVG01018094001' => 'vvi', 'GSVIVG01021787001' => 'vvi', 'GSVIVG01023585001' => 'vvi', 'HanXRQChr03g0064821' => 'han', 'HanXRQChr05g0133251' => 'han', 'HanXRQChr06g0182041' => 'han', 'HanXRQChr12g0382231' => 'han', 'HanXRQChr15g0467011' => 'han', 'Haze_04359' => 'cav', 'Haze_19228' => 'cav', 'Haze_24526' => 'cav', 'Hma1.2p1_0028F.1_g017410' => 'hma', 'Hma1.2p1_0172F.1_g076180' => 'hma', 'Hma1.2p1_0222F.1_g093370' => 'hma', 'Hma1.2p1_0897F.1_g234200' => 'hma', 'Hma1.2p1_2099F.1_g314000' => 'hma', 'HPP92_000763' => 'vpl', 'HPP92_005723' => 'vpl', 'HPP92_005793' => 'vpl', 'HPP92_005794' => 'vpl', 'HPP92_009625' => 'vpl', 'HPP92_017482' => 'vpl', 'HPP92_017489' => 'vpl', 'HPP92_025284' => 'vpl', 'Hund02876' => 'sun', 'Hund06973' => 'sun', 'Hund09566' => 'sun', 'Hund26563' => 'sun', 'Lalb_Chr02g0148841' => 'lal', 'Lalb_Chr06g0162691' => 'lal', 'Lalb_Chr07g0179781' => 'lal', 'Lalb_Chr08g0234031' => 'lal', 'Lalb_Chr21g0310991' => 'lal', 'Lj1A57T47' => 'lonja', 'Lj1g0001612' => 'lja', 'Lj4g0003570' => 'lja', 'Lj5g0000327' => 'lja', 'Lj5g0010523' => 'lja', 'Lj6A653T78' => 'lonja', 'Lj6g0027487' => 'lja', 'Lj7A456T19' => 'lonja', 'Lj9A715T26' => 'lonja', 'Lsat_1_v5_gn_0_46301' => 'lsa', 'Lsat_1_v5_gn_5_67340' => 'lsa', 'Lsat_1_v5_gn_7_48681' => 'lsa', 'Lsat_1_v5_gn_8_62120' => 'lsa', 'Lsat_1_v5_gn_9_8180' => 'lsa', 'Manes.01G201900' => 'mes', 'Manes.06G065350' => 'mes', 'Manes.08G134700' => 'mes', 'Manes.09G153000' => 'mes', 'Manes.14G112400' => 'mes', 'Manes.16G090000' => 'mes', 'Mapoly0071s0105' => 'mpo', 'Mapoly0502s0001' => 'mpo', 'MBI11_g38179_MAGBIO' => 'mbi', 'MBI13_g01681_MAGBIO' => 'mbi', 'MBI14_g38948_MAGBIO' => 'mbi', 'MBI19_g24713_MAGBIO' => 'mbi', 'MD02G1009200' => 'mdo', 'MD02G1103800' => 'mdo', 'MD04G1224700' => 'mdo', 'MD05G1206200' => 'mdo', 'MD10G1193200' => 'mdo', 'MD12G1241500' => 'mdo', 'MD15G1154600' => 'mdo', 'Medtr1g070870' => 'mtr', 'Medtr1g080890' => 'mtr', 'Medtr4g131160' => 'mtr', 'MELO3C000826.2' => 'cme', 'MELO3C004429.2' => 'cme', 'MELO3C010237.2' => 'cme', 'MELO3C015379.2' => 'cme', 'MELO3C015760.2' => 'cme', 'Migut.D00370' => 'egut', 'Migut.F00637' => 'egut', 'Migut.J01333' => 'egut', 'Migut.K00336' => 'egut', 'Migut.K00339' => 'egut', 'Migut.N02180' => 'egut', 'MSTRG.12543' => 'ama', 'MSTRG.17472' => 'ama', 'MSTRG.18282' => 'ama', 'MSTRG.24707' => 'ama', 'MSTRG.26286' => 'ama', 'MSTRG.26290' => 'ama', 'MSTRG.6130' => 'ama', 'Nitab4.5_0000187g0130' => 'nta', 'Nitab4.5_0000525g0100' => 'nta', 'Nitab4.5_0001478g0050' => 'nta', 'Nitab4.5_0002315g0100' => 'nta', 'Nitab4.5_0003053g0050' => 'nta', 'Nitab4.5_0004203g0020' => 'nta', 'Nitab4.5_0004815g0010' => 'nta', 'Nitab4.5_0006408g0030' => 'nta', 'Nitab4.5_0019126g0010' => 'nta', 'Nn1g01742' => 'nnu', 'Nn1g04685' => 'nnu', 'Nn2g12329' => 'nnu', 'Nn3g16778' => 'nnu', 'Nn3g19502' => 'nnu', 'Nn4g26194' => 'nnu', 'Nn4g26195' => 'nnu', 'Nn7g37221' => 'nnu', 'Nn8g38528' => 'nnu', 'Nn8g39838' => 'nnu', 'Oeu002274.1' => 'oeu', 'Oeu003601.2' => 'oeu', 'Oeu018175.1' => 'oeu', 'Oeu021260.2' => 'oeu', 'Oeu025789.1' => 'oeu', 'Oeu026540.1' => 'oeu', 'Oeu043499.1' => 'oeu', 'Oeu050488.1' => 'oeu', 'Oeu063428.1' => 'oeu', 'Os02g0564700' => 'osa', 'Os02g0795800' => 'osa', 'Os03g0797600' => 'osa', 'Os06g0184000' => 'osa', 'Os06g0193400' => 'osa', 'Os07g0182200' => 'osa', 'Peaxi162Scf00049g02223' => 'pax', 'Peaxi162Scf00062g00421' => 'pax', 'Peaxi162Scf00347g01020' => 'pax', 'Peaxi162Scf01416g00015' => 'pax', 'PGR004G1974' => 'pgr', 'PGR102G0997' => 'pgr', 'PGR119G0158' => 'pgr', 'PGR142G0757' => 'pgr', 'PGSC0003DMG400006089' => 'stu', 'PGSC0003DMG400007827' => 'stu', 'PGSC0003DMG400011133' => 'stu', 'PGSC0003DMG400013393' => 'stu', 'PGSC0003DMG400019334' => 'stu', 'Phvul.001G156400' => 'pvu', 'Phvul.003G157100' => 'pvu', 'Phvul.007G176900' => 'pvu', 'Phvul.007G187500' => 'pvu', 'Phvul.009G207000' => 'pvu', 'Potri.002G045400' => 'ptr', 'Potri.005G053500' => 'ptr', 'Potri.005G217800' => 'ptr', 'Potri.006G135600' => 'ptr', 'Potri.006G186600' => 'ptr', 'Potri.013G041000' => 'ptr', 'Potri.018G109500' => 'ptr', 'Pp3c14_15890' => 'ppa', 'Pp3c17_17000' => 'ppa', 'Prupe.1G127000' => 'ppe', 'Prupe.1G199200' => 'ppe', 'Prupe.2G080600' => 'ppe', 'Prupe.5G043700' => 'ppe', 'Prupe.6G343400' => 'ppe', 'Prupe.7G191100' => 'ppe', 'Prupe.7G260800' => 'ppe', 'Prupe.8G232600' => 'ppe', 'Psat0s1875g0160' => 'psa', 'Psat0ss6646g0040' => 'psa', 'Psat3g060720' => 'psa', 'Psat6g146080' => 'psa', 'Psat7g184080' => 'psa', 'PSO135G0322' => 'pso', 'PSO170G5150' => 'pso', 'PSO210G3215' => 'pso', 'PSO210G4740' => 'pso', 'PSO238G0043' => 'pso', 'PSO384G1736' => 'pso', 'PSO425G0003' => 'pso', 'PSO724G0466' => 'pso', 'PSO832G2842' => 'pso', 'QL02p027724' => 'qlo', 'QL02p092804' => 'qlo', 'QL03p026607' => 'qlo', 'QL12p042644' => 'qlo', 'QL93p0107_0045' => 'qlo', 'RcHm_v2.0_Chr2g0085911' => 'rch', 'RcHm_v2.0_Chr2g0096091' => 'rch', 'RcHm_v2.0_Chr3g0451111' => 'rch', 'RcHm_v2.0_Chr6g0289601' => 'rch', 'Rhsim01G0270100' => 'rsi', 'Rhsim02G0032500' => 'rsi', 'Rhsim04G0194900' => 'rsi', 'Sabra02G0036400' => 'sbr', 'Sabra05G0046900' => 'sbr', 'Sabra05G0167000' => 'sbr', 'Sabra06G0106300' => 'sbr', 'Sabra06G0141700' => 'sbr', 'Sabra06G0142700' => 'sbr', 'Sabra13G0037900' => 'sbr', 'Sabra18G0092400' => 'sbr', 'SalBow1G3556' => 'sbo', 'SalBow1G8475' => 'sbo', 'SalBow3G3137' => 'sbo', 'SalBow4G1651' => 'sbo', 'SalBow6G6735' => 'sbo', 'Sc05g0001030' => 'sci', 'Sc16g0001210' => 'sci', 'Sc18g0007610' => 'sci', 'Sc20g0000320' => 'sci', 'Sc25g0004160' => 'sci', 'Sed0000198' => 'sed', 'Sed0005538' => 'sed', 'Sed0009964' => 'sed', 'Sed0012092' => 'sed', 'Sed0015923' => 'sed', 'SEGI_05963' => 'sgi', 'SEGI_33706' => 'sgi', 'SGA_v2.0_scaffold138G35284' => 'sas', 'SGA_v2.0_scaffold265G46116' => 'sas', 'SGA_v2.0_scaffold44G16660' => 'sas', 'SGA_v2.0_scaffold45G17039' => 'sas', 'SGA_v2.0_scaffold60G20964' => 'sas', 'SGA_v2.0_scaffold98G29279' => 'sas', 'SHI00899' => 'shi', 'SMO196G0049' => 'smo', 'SMO304G0116' => 'smo', 'SMO351G0123' => 'smo', 'Solyc03g005350.3' => 'sly', 'Solyc07g005400.3' => 'sly', 'Solyc09g065820.4' => 'sly', 'Solyc09g083220.3' => 'sly', 'Solyc12g010170.2' => 'sly', 'Sopen03g001390' => 'spe', 'Sopen07g001380' => 'spe', 'Sopen09g027610' => 'spe', 'Sopen09g032140' => 'spe', 'Sopen12g005040' => 'spe', 'Sp1g02030' => 'spa', 'Sp4g03250' => 'spa', 'Sp6g02500' => 'spa', 'Sp6g19690' => 'spa', 'Sp7g28850' => 'spa', 'TAR362G0965' => 'tar', 'TAR365G0366' => 'tar', 'TAR381G0617' => 'tar', 'TAR383G0928' => 'tar', 'TAR624G0907' => 'tar', 'TAR625G0948' => 'tar', 'TAR636G0752' => 'tar', 'TAR636G1973' => 'tar', 'THA.LOC104801255' => 'tha', 'THA.LOC104803566' => 'tha', 'THA.LOC104813270' => 'tha', 'THA.LOC104819452' => 'tha', 'THA.LOC104823452' => 'tha', 'THA.LOC104823752' => 'tha', 'THA.LOC104825982' => 'tha', 'Thecc.01G268000' => 'tca', 'Thecc.05G283300' => 'tca', 'Thecc.09G033000' => 'tca', 'Thecc.09G069600' => 'tca', 'Thhalv10000220m.g' => 'esa', 'Thhalv10008279m.g' => 'esa', 'Thhalv10014212m.g' => 'esa', 'Thhalv10025656m.g' => 'esa', 'Thhalv10028824m.g' => 'esa', 'TPR.G12828' => 'tpr', 'TPR.G19089' => 'tpr', 'TPR.G33092' => 'tpr', 'TPR.G39186' => 'tpr', 'TPR.G974' => 'tpr', 'TWI12G1207' => 'twi', 'TWI18G1063' => 'twi', 'TWI34G0886' => 'twi', 'TWI63G0182' => 'twi', 'TWI63G0387' => 'twi', 'unitig_37.g12642' => 'ugi', 'unitig_61.g26260' => 'ugi', 'unitig_899.g15449' => 'ugi', 'vmacro06087' => 'vma', 'vmacro08399' => 'vma', 'vmacro14876' => 'vma', 'vmacro15401' => 'vma', 'VMungo0720G1507' => 'vmu', 'VMungo0720G2445' => 'vmu', 'VMungo1215G3012' => 'vmu', 'VMungo1309G1338' => 'vmu', 'VMungo1383G1577' => 'vmu', 'Zm00001eb099470' => 'zma', 'Zm00001eb192430' => 'zma', 'Zm00001eb212930' => 'zma', 'Zm00001eb244380' => 'zma', 'Zm00001eb257810' => 'zma', 'Zm00001eb278470' => 'zma', 'Zm00001eb301520' => 'zma', 'Zm00001eb312850' => 'zma', 'Zm00001eb374120' => 'zma', 'Zm00001eb374700' => 'zma' ) $gf_id = 'HOM05D001048' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001048' ) $data_identifier = 'HOM05D001048' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 7, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 6, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 19, 'gra' => (int) 10, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 8, 'sun' => (int) 4, 'lal' => (int) 5, 'lonja' => (int) 4, 'lja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 9, 'nnu' => (int) 10, 'oeu' => (int) 9, 'osa' => (int) 6, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 2, 'ppe' => (int) 8, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 2, 'sas' => (int) 6, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374700' $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